Former WAFA striker, Samuel Tetteh, opened the scores with a beautiful placement after a beautiful control and rounding off two markers to slot home.
But against all odds, the Ugandans snatched the equaliser with the only opportunity that came their way in the second half from a free kick expertly executed from outside the goal area by substitute Muhadjiri Hakizimana.
Having already qualified for the tournament, Coach Avram Grant played without Wakasu Mubarak and John Boye at the back, replacing them with Daniel Amartey and Edwin Gyimah.
Samuel Tetteh, David Accam, Alfred Duncan, Frank Acheampong also jumped into the first team in the absence of skipper Asamoah Gyan, his deputy Andre Ayew and Jordan Ayew who was introduced after the Rwanda equaliser.
But that was no excuse for the abysmal display considering them playing a locally assembled Rwandan team that gave a good account of themselves and had a large number of the sparse crowd applaud the equaliser that saw Razak Braimah sprawl on the turf in vain.
Duncan was the brightest spot on the Ghana side with his incisive passes that always left the Rwandan defense open while Acheampong’s mesmerising runs was always a problem for the right side of the Rwandan defense.
The Amavubis warmed themselves into the game and thrilled the fans with their beautiful inter-positional display but failed to threaten the Ghana defense who provided a real shield for goalkeeper Razak who was virtually on holiday for greater parts of the exchanges.
Tetteh broke the deadlock in the 24th minute and did so from a pass from Acheampong.
Acheampong outrun his marker and set up the Red Bull Salzburg winger who also rounded two defenders and curled to the right side of the goal post for the long awaited opener.
That was expected to open the floodgate for a goal harvest but it was rather the first and last moment for the fans as the rest of the game was reduced to a training session as the Stars knocked the ball around with the Rwandans constantly remained on the chase.
The closest the Rwandans came was in the 33rd minute but Jacques Tuyisenge effort was too feeble to test Razak.
Six minutes to the hour mark, Accam and Tetteh surprisingly missed two clear chances to increase the tally for Ghana as Emmanuel Agyeman Badu wasted three glaring chances.
In the second half, Avram Grant brought on Atletico Madrid midfielder Thomas Teye Partey for Accam but it was the Rwandans that scored the only goal of the half from a well taken free kick from Hakizimana.
Grant quickly halted the introduction of Yaw Yeboah and rather brought on Jordan Ayew but the Rwandans stood resolute to earn a point away from home.
Ghana finished the qualifiers with 14 points, seven above Rwanda.
By Andrew Nortey